David Yuan
6 Papers
David Yuan is an academic researcher. The author has contributed to research in topics: Medicine & Biology. The author has an hindex of 2, co-authored 3 publications.
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Papers
The European Nucleotide Archive in 2022
Josephine Burgin,Alisha Ahamed,Carla A. Cummins,Rajkumar Devraj,K. Gueye,Dipayan Sen Gupta,Vikas Gupta,Muhammad Haseeb,Maira Ihsan,Eugene Ivanov,Suran Jayathilaka,Vishnukumar Balavenkataraman Kadhirvelu,Manish Kumar,Ankur Lathi,Rasko Leinonen,Milena Mansurova,Jasmine McKinnon,Colman O'Cathail,Joana Paupério,Stephane Pesant,Nadim Rahman,Gabriele Rinck,S. Selvakumar,Swati Suman,Senthilnathan Vijayaraja,Zahra Waheed,Peter Woollard,David Yuan,Ahmad M-S Zyoud,Tony Burdett,Guy Cochrane +30 more
TL;DR: The European Nucleotide Archive (ENA) as discussed by the authors is an open and supported platform for the management, archiving, publication, and dissemination of data; and to the scientific community as a whole, it offers a globally comprehensive data set through a host of data discovery and retrieval tools.
The European Nucleotide Archive in 2023.
David Yuan,Alisha Ahamed,Josephine Burgin,Carla A. Cummins,Rajkumar Devraj,Khadim Gueye,Dipayan Sen Gupta,Vikas Gupta,Muhammad Haseeb,Maira Ihsan,Eugene Ivanov,Suran Jayathilaka,Vishnukumar Balavenkataraman Kadhirvelu,Manish Kumar,Ankur Lathi,Rasko Leinonen,Jasmine McKinnon,Lili Meszaros,Colman O'Cathail,Dennis Ouma,Joana Paupério,Stephane Pesant,Nadim Rahman,Gabriele Rinck,S. Selvakumar,Swati Suman,Yanisa Sunthornyotin,Marianna Ventouratou,Senthilnathan Vijayaraja,Zahra Waheed,Peter Woollard,Ahmad M-S Zyoud,Tony Burdett,Guy Cochrane +33 more
TL;DR: Recent progress and improvements to ENA services are described and three areas of work in 2023 are focused upon: FAIRness of ENA data, pandemic preparedness and foundational technology.
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Identification of mutations in SARS-CoV-2 PCR primer regions
Anikó Mentes,Krisztián Papp,Dávid Visontai,József Stéger,István Csabai,Guy Cochrane,Nadim Rahman,Carla A. Cummins,David Yuan,S. Selvakumar,Milena Mansurova,Colman O'Cathail,Alexey Sokolov,Ross Thorne,Marion Koopmans,David F. Nieuwenhuijse,Bas Oude-Munnink,Nathalie Worp,Clara Amid,Anna Medgyes-Horváth,Orsolya Pipek +20 more
TL;DR: In this paper , the authors proposed an analysis pipeline to discover genomic variations overlapping the target regions of commonly used PCR primer sets and provided the list of these mutations in a publicly available format based on a dataset of more than 1.2 million SARS-CoV-2 samples.
Mobilisation and analyses of publicly available SARS-CoV-2 data for pandemic responses
Nadim Rahman,Colman O'Cathail,Ahmad M-S Zyoud,Alexey Sokolov,Bas B. Oude Munnink,Björn Grüning,Carla A. Cummins,Clara Amid,David F. Nieuwenhuijse,Dávid Visontai,David Yuan,Dipayan Sen Gupta,Divyae K. Prasad,Gabor Gulyas,Gabriele Rinck,Jasmine McKinnon,Jeena Rajan,Jeff Knaggs,Jeffrey Edward Skiby,József Stéger,Judit Szarvas,K. Gueye,Krisztián Papp,M. R. Hoek,Manish Kumar,Marianna Ventouratou,Marie-Catherine Bouquieaux,Milena Mansurova,Muhammad Haseeb,Nathalie Worp,Peter W. Harrison,Rasko Leinonen,Ross Thorne,S. Selvakumar,Sarah E. Hunt,Sundar Venkataraman,Suran Jayathilaka,Timothee Cezard,Wolf-Martin Maier,Zahra Waheed,Zamin Iqbal,Frank Møller Aarestrup,István Csabai,Marion Koopmans,Tony Burdett,Guy Cochrane +45 more
TL;DR: The European COVID-19 Data Platform was launched to support this data sharing, and has resulted in the deposition of several million SARS-CoV-2 raw reads as mentioned in this paper , which resulted in an unprecedented level of data sharing to open repositories.
A New Cloud-Native Tool for Pharmacogenetic Analysis
David Yuan,Zhenyu Li,Rohan Thomas,David M. Hwang +3 more
TL;DR: A new cloud-native tool, Pgxtools, for pharmacogenetic analysis accurately identifies actionable variants in 13 PGx-related genes and provides clinical interpretations and recommendations based on clinical practice guidelines.